Search USGS⌕ Search

Geology topics

Raymond F. Kokaly

Publications and source records attributed to Raymond F. Kokaly.

At least 127 records · Page 7Linked to original sources

Hyperspectral surface materials map of quadrangles 2964, 2966, 3064, and 3066, Shah-Esmail (617), Reg-Alaqadari (618), Samandkhan-Karez (713), Laki-Bander (611), Jahangir-Naweran (612), and Sreh-Chena (707) quadrangles, Afghanistan, showing carbonates, phyllosilicates, sulfates, altered minerals, and other materials

This map shows the spatial distribution of selected carbonates, phyllosilicates, sulfates, altered minerals, and other materials derived from analysis of airborne HyMap™ imaging spectrometer (hyperspectral) data of Afghanistan collected in late 2007. The map is one in a series of U.S. Geological Survey/Afghanistan Geological Survey quadrangle maps covering Afghanistan. Flown at an altitude of 50,000 feet (15,240 meters (m)), the HyMap™ imaging spectrometer measured reflected sunlight in 128 channels, covering wavelengths between 0.4 and 2.5 μm. The data were georeferenced, atmospherically corrected and converted to apparent surface reflectance, empirically adjusted using ground-based reflectance measurements, and combined into a mosaic with 23-m pixel spacing. Variations in water vapor and dust content of the atmosphere, in solar angle, and in surface elevation complicated correction; therefore, some classification differences may be present between adjacent flight lines. The reflectance spectrum of each pixel of HyMap™ imaging spectrometer data was compared to the reference materials in a spectral library of minerals, vegetation, water, and other materials. Minerals occurring abundantly at the surface and those having unique spectral features were easily detected and discriminated, while minerals having slightly different compositions but similar spectral features were less easily discriminated; thus, some map classes consist of several minerals having similar spectra, such as “Epidote or chlorite.” A designation of “Not classified” was assigned to the pixel when there was no match with reference spectra.

Open-File Report↗

Hyperspectral surface materials map of quadrangles 2964, 2966, 3064, and 3066, Shah-Esmail (617), Reg-Alaqadari (618), Samandkhan-Karez (713), Laki-Bander (611), Jahangir-Naweran (612), and Sreh-Chena (707) quadrangles, Afghanistan, showing iron-bearing minerals and other materials

This map shows the spatial distribution of selected iron-bearing minerals and other materials derived from analysis of airborne HyMap™ imaging spectrometer (hyperspectral) data of Afghanistan collected in late 2007. This map is one in a series of U.S. Geological Survey/Afghanistan Geological Survey quadrangle maps covering Afghanistan. Flown at an altitude of 50,000 feet (15,240 meters (m)), the HyMap™ imaging spectrometer measured reflected sunlight in 128 channels, covering wavelengths between 0.4 and 2.5 μm. The data were georeferenced, atmospherically corrected and converted to apparent surface reflectance, empirically adjusted using ground-based reflectance measurements, and combined into a mosaic with 23-m pixel spacing. Variations in water vapor and dust content of the atmosphere, in solar angle, and in surface elevation complicated correction; therefore, some classification differences may be present between adjacent flight lines. The reflectance spectrum of each pixel of HyMap™ imaging spectrometer data was compared to the reference materials in a spectral library of minerals, vegetation, water, and other materials. Minerals occurring abundantly at the surface and those having unique spectral features were easily detected and discriminated, while minerals having slightly different compositions but similar spectral features were less easily discriminated; thus, some map classes consist of several minerals having similar spectra, such as “Goethite and jarosite.” A designation of “Not classified” was assigned to the pixel when there was no match with reference spectra.

Open-File Report↗

Iron mineralogy and bioaccessibility of dust generated from soils as determined by reflectance spectroscopy and magnetic and chemical properties--Nellis Dunes recreational area, Nevada

Atmospheric mineral dust exerts many important effects on the Earth system, such as atmospheric temperatures, marine productivity, and melting of snow and ice. Mineral dust also can have detrimental effects on human health through respiration of very small particles and the leaching of metals in various organs. These effects can be better understood through characterization of the physical and chemical properties of dust, including certain iron oxide minerals, for their extraordinary radiative properties and possible effects on lung inflammation. Studies of dust from the Nellis Dunes recreation area near Las Vegas, Nevada, focus on characteristics of radiative properties (capacity of dust to absorb solar radiation), iron oxide mineral type and size, chemistry, and bioaccessibility of metals in fluids that simulate human gastric, lung, and phagolysosomal fluids. In samples of dust from the Nellis Dunes recreation area with median grain sizes of 2.4, 3.1, and 4.3 micrometers, the ferric oxide minerals goethite and hematite, at least some of it nanosized, were identified. In one sample, in vitro bioaccessibility experiments revealed high bioaccessibility of arsenic in all three biofluids and higher leachate concentration and bioaccessibility for copper, uranium, and vanadium in the simulated lung fluid than in the phagolysosomal fluid. The combination of methods used here to characterize mineral dust at the Nellis Dunes recreation area can be applied to global dust and broad issues of public health.

Nevada↗

Spectroscopic remote sensing for material identification, vegetation characterization, and mapping

Identifying materials by measuring and analyzing their reflectance spectra has been an important procedure in analytical chemistry for decades. Airborne and space-based imaging spectrometers allow materials to be mapped across the landscape. With many existing airborne sensors and new satellite-borne sensors planned for the future, robust methods are needed to fully exploit the information content of hyperspectral remote sensing data. A method of identifying and mapping materials using spectral feature analyses of reflectance data in an expert-system framework called MICA (Material Identification and Characterization Algorithm) is described. MICA is a module of the PRISM (Processing Routines in IDL for Spectroscopic Measurements) software, available to the public from the U.S. Geological Survey (USGS) at http://pubs.usgs.gov/of/2011/1155/. The core concepts of MICA include continuum removal and linear regression to compare key diagnostic absorption features in reference laboratory/field spectra and the spectra being analyzed. The reference spectra, diagnostic features, and threshold constraints are defined within a user-developed MICA command file (MCF). Building on several decades of experience in mineral mapping, a broadly-applicable MCF was developed to detect a set of minerals frequently occurring on the Earth's surface and applied to map minerals in the country-wide coverage of the 2007 Afghanistan HyMap data set. MICA has also been applied to detect sub-pixel oil contamination in marshes impacted by the Deepwater Horizon incident by discriminating the C-H absorption features in oil residues from background vegetation. These two recent examples demonstrate the utility of a spectroscopic approach to remote sensing for identifying and mapping the distributions of materials in imaging spectrometer data.

Conference Paper↗

Mapping the distribution of materials in hyperspectral data using the USGS Material Identification and Characterization Algorithm (MICA)

Identifying materials by measuring and analyzing their reflectance spectra has been an important method in analytical chemistry for decades. Airborne and space-based imaging spectrometers allow scientists to detect materials and map their distributions across the landscape. With new satellite-borne hyperspectral sensors planned for the future, for example, HYSPIRI (HYPerspectral InfraRed Imager), robust methods are needed to fully exploit the information content of hyperspectral remote sensing data. A method of identifying and mapping materials using spectral feature based analysis of reflectance data in an expert-system framework called MICA (Material Identification and Characterization Algorithm) is described in this paper. The core concepts and calculations of MICA are presented. A MICA command file has been developed and applied to map minerals in the full-country coverage of the 2007 Afghanistan HyMap hyperspectral data.

Conference Paper↗

DESI-Detection of early-season invasives (software-installation manual and user's guide version 1.0)

This report describes a software system for detecting early-season invasive plant species, such as cheatgrass. The report includes instructions for installing the software and serves as a user's guide in processing Landsat satellite remote sensing data to map the distributions of cheatgrass and other early-season invasive plants. The software was developed for application to the semi-arid regions of southern Utah; however, the detection parameters can be altered by the user for application to other areas.

Open-File Report↗

Detecting Cheatgrass on the Colorado Plateau using Landsat data: A tutorial for the DESI software

Invasive plant species disrupt native ecosystems and cause economic harm to public lands. In this report, an example of applying the Detection of Early Season Invasives software to mapping cheatgrass infestations is given. A discussion of each step of the DESI process is given, including selection of Landsat images. Tutorial data, covering a semi-arid area in southern Utah, are distributed with this report. Tips on deriving the inputs required to run DESI are provided. An approach for evaluating and adjusting detection parameters by examining interim products of DESI is discussed.

Open-File Report↗

Shoreline surveys of oil-impacted marsh in southern Louisiana, July to August 2010

This report describes shoreline surveys conducted in the marshes of Louisiana in areas impacted by oil spilled from the Deepwater Horizon offshore oil drilling platform in the Gulf of Mexico. Three field expeditions were conducted on July 7-10, August 12-14, and August 24-26, 2010, in central Barataria Bay and the Bird's Foot area at the terminus of the Mississippi River delta. This preliminary report includes locations of survey points, a photographic record of each site, field observations of vegetation cover and descriptions of oil coverage in the water and on plants, including measurements of the distance of oil penetration from the shoreline. Oiling in Barataria Bay marshes ranged from lightly oiled sections of stems of the predominant species Spartina alterniflora and Juncus roemerianus to wide zones of oil-damaged canopies and broken stems penetrating as far as 19 m into the marsh. For the 34 survey points in Barataria Bay where dimensions of oil damaged zones were measured, the depth of the oil-damaged zone extended, on average, 6.7 m into the marsh, with a standard deviation of 4.5 m. The median depth of penetration was 5.5 m. The extent to which the oil-damaged zone stretched along the shore varied with location but often extended more than 100 m parallel to the shoreline. Oil was observed on the marsh sediment at some sites in Barataria Bay. This oiled sediment was observed both above and a few centimeters below the water surface depending on the level of the tide. Phragmites australis was the dominant vegetation in oil-impacted zones in the Bird's Foot area of the Mississippi River delta. Oiling of the leaves and portions of the thick stems of P. australis was observed during field surveys. In contrast to the marshes of Barataria Bay, fewer areas of oil-damaged canopy were documented in the Bird's Foot area. In both areas, oil was observed to be persistent on the marsh plants from the earliest (July 7) to the latest (August 24) surveys. At sites repeatedly visited in Barataria Bay over this time period, oiled plant stems and leaves, laid over by the weight of the oil, broke and were removed from the vegetation canopy, likely due to tidal action. In these areas, a zone of 2-5 cm high plant stubble remained at the edge of the marsh. Signs of both further degradation and recovery were observed and varied with site. Oil damage to the marsh at some sites resulted in complete reduction of live vegetation cover and erosion of exposed sediments, while other damaged zones had signs of regrowth of vegetation in up to 10 percent of the areal coverage.

Open-File Report↗

PRISM: Processing routines in IDL for spectroscopic measurements (installation manual and user's guide, version 1.0)

This report describes procedures for installing and using the U.S. Geological Survey Processing Routines in IDL for Spectroscopic Measurements (PRISM) software. PRISM provides a framework to conduct spectroscopic analysis of measurements made using laboratory, field, airborne, and space-based spectrometers. Using PRISM functions, the user can compare the spectra of materials of unknown composition with reference spectra of known materials. This spectroscopic analysis allows the composition of the material to be identified and characterized. Among its other functions, PRISM contains routines for the storage of spectra in database files, import/export of ENVI spectral libraries, importation of field spectra, correction of spectra to absolute reflectance, arithmetic operations on spectra, interactive continuum removal and comparison of spectral features, correction of imaging spectrometer data to ground-calibrated reflectance, and identification and mapping of materials using spectral feature-based analysis of reflectance data. This report provides step-by-step instructions for installing the PRISM software and running its functions.

Open-File Report↗

A method for qualitative mapping of thick oil spills using imaging spectroscopy

A method is described to create qualitative images of thick oil in oil spills on water using near-infrared imaging spectroscopy data. The method uses simple 'three-point-band depths' computed for each pixel in an imaging spectrometer image cube using the organic absorption features due to chemical bonds in aliphatic hydrocarbons at 1.2, 1.7, and 2.3 microns. The method is not quantitative because sub-pixel mixing and layering effects are not considered, which are necessary to make a quantitative volume estimate of oil.

Open-File Report↗

A rapid method for creating qualitative images indicative of thick oil emulsion on the ocean's surface from imaging spectrometer data

This report describes a method to create color-composite images indicative of thick oil:water emulsions on the surface of clear, deep ocean water by using normalized difference ratios derived from remotely sensed data collected by an imaging spectrometer. The spectral bands used in the normalized difference ratios are located in wavelength regions where the spectra of thick oil:water emulsions on the ocean's surface have a distinct shape compared to clear water and clouds. In contrast to quantitative analyses, which require rigorous conversion to reflectance, the method described is easily computed and can be applied rapidly to radiance data or data that have been atmospherically corrected or ground-calibrated to reflectance. Examples are shown of the method applied to Airborne Visible/Infrared Imaging Spectrometer data collected May 17 and May 19, 2010, over the oil spill from the Deepwater Horizon offshore oil drilling platform in the Gulf of Mexico.

Open-File Report↗

Estimated minimum discharge rates of the Deepwater Horizon spill— Interim report to the flow rate technical group from the Mass Balance Team

All of the calculations and results in this report are preliminary and intended for the purpose, and only for the purpose, of aiding the incident team in assessing the extent of the spilled oil for ongoing response efforts. Other applications of this report are not authorized and are not considered valid. Because of time constraints and limitations of data available to the experts, many of their estimates are approximate, are subject to revision, and certainly should not be used as the Federal Government's final values for assessing volume of the spill or its impact to the environment or to coastal communities. Each expert that contributed to this report reserves the right to alter his conclusions based upon further analysis or additional information. An estimated minimum total oil discharge was determined by calculations of oil volumes measured as of May 17, 2010. This included oil on the ocean surface measured with satellite and airborne images and with spectroscopic data (129,000 barrels to 246,000 barrels using less and more aggressive assumptions, respectively), oil skimmed off the surface (23,500 barrels from U.S. Coast Guard [USCG] estimates), oil burned off the surface (11,500 barrels from USCG estimates), dispersed subsea oil (67,000 to 114,000 barrels), and oil evaporated or dissolved (109,000 to 185,000 barrels). Sedimentation (oil captured from Mississippi River silt and deposited on the ocean bottom), biodegradation, and other processes may indicate significant oil volumes beyond our analyses, as will any subsurface volumes such as suspended tar balls or other emulsions that are not included in our estimates. The lower bounds of total measured volumes are estimated to be within the range of 340,000 to 580,000 barrels as of May 17, 2010, for an estimated average minimum discharge rate of 12,500 to 21,500 barrels per day for 27 days from April 20 to May 17, 2010.

Louisiana↗

A method for quantitative mapping of thick oil spills using imaging spectroscopy

In response to the Deepwater Horizon oil spill in the Gulf of Mexico, a method of near-infrared imaging spectroscopic analysis was developed to map the locations of thick oil floating on water. Specifically, this method can be used to derive, in each image pixel, the oil-to-water ratio in oil emulsions, the sub-pixel areal fraction, and its thicknesses and volume within the limits of light penetration into the oil (up to a few millimeters). The method uses the shape of near-infrared (NIR) absorption features and the variations in the spectral continuum due to organic compounds found in oil to identify different oil chemistries, including its weathering state and thickness. The method is insensitive to complicating conditions such as moderate aerosol scattering and reflectance level changes from other conditions, including moderate sun glint. Data for this analysis were collected by the NASA Airborne Visual Infrared Imaging Spectrometer (AVIRIS) instrument, which was flown over the oil spill on May 17, 2010. Because of the large extent of the spill, AVIRIS flight lines could cover only a portion of the spill on this relatively calm, nearly cloud-free day. Derived lower limits for oil volumes within the top few millimeters of the ocean surface directly probed with the near-infrared light detected in the AVIRIS scenes were 19,000 (conservative assumptions) to 34,000 (aggressive assumptions) barrels of oil. AVIRIS covered about 30 percent of the core spill area, which consisted of emulsion plumes and oil sheens. Areas of oil sheen but lacking oil emulsion plumes outside of the core spill were not evaluated for oil volume in this study. If the core spill areas not covered by flight lines contained similar amounts of oil and oil-water emulsions, then extrapolation to the entire core spill area defined by a MODIS (Terra) image collected on the same day indicates a minimum of 66,000 to 120,000 barrels of oil was floating on the surface. These estimates are preliminary and subject to revision pending further analysis. Based on laboratory measurements, near-infrared (NIR) photons penetrate only a few millimeters into oil-water emulsions. As such, the oil volumes derived with this method are lower limits. Further, the detection is only of thick surface oil and does not include sheens, underwater oil, or oil that had already washed onto beaches and wetlands, oil that had been burned or evaporated as of May 17. Because NIR light penetration within emulsions is limited, and having made field observations that oil emulsions sometimes exceeded 20 millimeters in thickness, we estimate that the volume of oil, including oil thicker than can be probed in the AVIRIS imagery, is possibly as high as 150,000 barrels in the AVIRIS scenes. When this value is projected to the entire spill, it gives a volume of about 500,000 barrels for thick oil remaining on the sea surface as of May 17. AVIRIS data cannot be used to confirm this higher volume, and additional field work including more in-situ measurements of oil thickness would be required to confirm this higher oil volume. Both the directly detected minimum range of oil volume, and the higher possible volume projection for oil thicker than can be probed with NIR spectroscopy imply a significantly higher total volume of oil relative to that implied by the early NOAA (National Oceanic and Atmospheric Administration) estimate of 5,000 barrels per day reported on their Web site.

Open-File Report↗

Sample collection of ash and burned soils from the October 2007 southern California Wildfires

Between November 2 through 9, 2007 scientists from the U.S. Geological Survey (USGS) collected samples of ash and burned soils from 28 sites in six areas burned as a result of the Southern California wildfires of October 2007, including the Harris, Witch, Santiago, Ammo, Canyon, and Grass Valley Fires. The primary goal of this sampling and analysis effort was to understand how differences in ash and burned soil composition relate to vegetation type, underlying bedrock geology, burn intensity, and residential versus wildland. Sampling sites were chosen with the input of local experts from the USGS Water Resources and Biological Resources Disciplines to help understand possible effects of the fires on water supplies, ecosystems, and endangered species. The sampling was also carried out in conjunction with detailed field analysis of the spectral reflectance characteristics of the ash, so that chemical and mineralogical characteristics of the field samples could be used to help interpret data collected as part of an airborne, hyperspectral remote-sensing survey of several of the burned areas in mid-late November, 2007. This report presents an overview of the field sampling methodologies used to collect the samples, includes representative photos of the sites sampled, and summarizes important characteristics of each of the collection sites. In this report we use the term “ash” to refer collectively to white mineral ash, which results from full combustion of vegetation and black charred organic matter from partial combustion of vegetation or other materials. These materials were found to be intermingled as a deposited residue on the soil surface following the Southern California fires of 2007.

Open-File Report↗

View_SPECPR: Software for plotting spectra (installation manual and user's guide, version 1.2)

This document describes procedures for installing and using the 'View_SPECPR' software system to plot spectra stored in SPECPR (SPECtrum Processing Routines) files. The View_SPECPR software is comprised of programs written in IDL (Interactive Data Language) that run within the ENVI (ENvironment for Visualizing Images) image processing system. SPECPR files are used by earth-remote-sensing scientists and planetary scientists for storing spectra collected by laboratory, field, and remote sensing instruments. A widely distributed SPECPR file is the U.S. Geological Survey (USGS) spectral library that contains thousands of spectra of minerals, vegetation, and man-made materials (Clark and others, 2007). SPECPR files contain reflectance data and associated wavelength and spectral resolution data, as well as meta-data on the time and date of collection and spectrometer settings. Furthermore, the SPECPR file automatically tracks changes to data records through its 'history' fields. For more details on the format and content of SPECPR files, see Clark (1993). For more details on ENVI, see ITT (2008). This program has been updated using an ENVI 4.5/IDL7.0 full license operating on a Windows XP operating system and requires the installation of the iTools components of IDL7.0; however, this program should work with full licenses on UNIX/LINUX systems. This software has not been tested with ENVI licenses on Windows Vista or Apple Operating Systems.

Open-File Report↗

Airborne Hyperspectral Survey of Afghanistan 2007: Flight Line Planning and HyMap Data Collection

Hyperspectral remote sensing data were acquired over Afghanistan with the HyMap imaging spectrometer (Cocks and others, 1998) operating on the WB-57 high altitude NASA research aircraft (http://jsc-aircraft-ops.jsc.nasa.gov/wb57/index.html). These data were acquired during the interval of August 22, 2007 to October 2, 2007, as part of the United States Geological Survey (USGS) project 'Oil and Gas Resources Assessment of the Katawaz and Helmand Basins'. A total of 218 flight lines of hyperspectral remote sensing data were collected over the country. This report describes the planning of the airborne survey and the flight lines that were flown. Included with this report are digital files of the nadir tracks of the flight lines, including a map of the labeled flight lines and corresponding vector shape files for geographic information systems (GIS).

Open-File Report↗

USGS Digital Spectral Library splib06a

Introduction We have assembled a digital reflectance spectral library that covers the wavelength range from the ultraviolet to far infrared along with sample documentation. The library includes samples of minerals, rocks, soils, physically constructed as well as mathematically computed mixtures, plants, vegetation communities, microorganisms, and man-made materials. The samples and spectra collected were assembled for the purpose of using spectral features for the remote detection of these and similar materials. Analysis of spectroscopic data from laboratory, aircraft, and spacecraft instrumentation requires a knowledge base. The spectral library discussed here forms a knowledge base for the spectroscopy of minerals and related materials of importance to a variety of research programs being conducted at the U.S. Geological Survey. Much of this library grew out of the need for spectra to support imaging spectroscopy studies of the Earth and planets. Imaging spectrometers, such as the National Aeronautics and Space Administration (NASA) Airborne Visible/Infra Red Imaging Spectrometer (AVIRIS) or the NASA Cassini Visual and Infrared Mapping Spectrometer (VIMS) which is currently orbiting Saturn, have narrow bandwidths in many contiguous spectral channels that permit accurate definition of absorption features in spectra from a variety of materials. Identification of materials from such data requires a comprehensive spectral library of minerals, vegetation, man-made materials, and other subjects in the scene. Our research involves the use of the spectral library to identify the components in a spectrum of an unknown. Therefore, the quality of the library must be very good. However, the quality required in a spectral library to successfully perform an investigation depends on the scientific questions to be answered and the type of algorithms to be used. For example, to map a mineral using imaging spectroscopy and the mapping algorithm of Clark and others (1990a, 2003b), one simply needs a diagnostic absorption band. The mapping system uses continuum-removed reference spectral features fitted to features in observed spectra. Spectral features for such algorithms can be obtained from a spectrum of a sample containing large amounts of contaminants, including those that add other spectral features, as long as the shape of the diagnostic feature of interest is not modified. If, however, the data are needed for radiative transfer models to derive mineral abundances from reflectance spectra, then completely uncontaminated spectra are required. This library contains spectra that span a range of quality, with purity indicators to flag spectra for (or against) particular uses. Acquiring spectral measurements and performing sample characterizations for this library has taken about 15 person-years of effort. Software to manage the library and provide scientific analysis capability is provided (Clark, 1980, 1993). A personal computer (PC) reader for the library is also available (Livo and others, 1993). The program reads specpr binary files (Clark, 1980, 1993) and plots spectra. Another program that reads the specpr format is written in IDL (Kokaly, 2005). In our view, an ideal spectral library consists of samples covering a very wide range of materials, has large wavelength range with very high precision, and has enough sample analyses and documentation to establish the quality of the spectra. Time and available resources limit what can be achieved. Ideally, for each mineral, the sample analysis would include X-ray diffraction (XRD), electron microprobe (EM) or X-ray fluorescence (XRF), and petrographic microscopic analyses. For some minerals, such as iron oxides, additional analyses such as Mossbauer would be helpful. We have found that to make the basic spectral measurements, provide XRD, EM or XRF analyses, and microscopic analyses, document the results, and complete an entry of one spectral library sample, all takes about

Data Series↗

Preliminary analytical results for ash and burned soils from the October 2007 southern California wildfires

The U.S. Geological Survey (USGS) collected ash and burned soils from about 28 sites in southern California wildfire areas (Harris, Witch, Ammo, Santiago, Canyon and Grass Valley) from Nov. 2 through 9, 2007 (table 1). USGS researchers are applying a wide variety of analytical methods to these samples, with the goal of helping identify characteristics of the ash and soils from wildland and suburban burned areas that may be of concern for their potential to adversely affect water quality, human health, endangered species, and debris-flow or flooding hazards. These studies are part of the Southern California Multi-Hazards Demonstration Project, and preliminary findings are presented here.

Open-File Report↗